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Published June 27, 2016 | Version v1
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Data from: Quantitative detection of rare interphase chromosome breaks and translocations by high-throughput imaging

Authors/Creators

  • 1. National Institutes of Health

Description

We report a method for the sensitive detection of rare chromosome breaks and translocations in interphase cells. HiBA-FISH (High-throughput break-apart FISH) combines high-throughput imaging with the measurement of the spatial separation of FISH probes flanking target genome regions of interest. As proof-of-principle, we apply hiBA-FISH to detect with high sensitivity and specificity rare chromosome breaks and translocations in the anaplastic large cell lymphoma breakpoint regions of NPM1 and ALK. This method complements existing approaches to detect translocations by overcoming the need for precise knowledge of translocation breakpoints and it extends traditional FISH by its quantitative nature.

Notes

Readme
Readme file.
Acapella_Scripts_Parameters
This zipped file contains the Acapella script used to analyze all the image datasets and the Acapella parameters files for each analysis session. The parameters files are named according to the relative image dataset analyzed.
R_Analysis_Fig3_6
This zipped file contains the The the .txt single-object level image analysis results files generated by Acapella, the .Rmd R script used for the analysis and the .html R output file. This .Rmd R script was used to generate Fig. 3 - 6 of the article.
R_Analysis_FigS1
This zipped file contains the The the .txt single-object level image analysis results files generated by Acapella, the .Rmd R script used for the analysis and the .html R output file. This .Rmd R script was used to generate Fig. S1 of the article.
BC_140819_M2A_GFP_ALK_UN
This zipped file contains the image dataset relative to Untreated Mac2A cells stained with the hiBA-ALK probe set. This dataset was used to generate Fig. 3 - 6 of the article.
BC_140713_K299_K299_ALK_UN
This zipped file contains the image dataset relative to Untreated K299 cells stained with the hiBA-ALK probe set. This dataset was used to generate Fig. 3 - 6 of the article.
BC_140713_K299_K299_NPM_UN
This zipped file contains the image dataset relative to Untreated K299 cells stained with the hiBA-NPM1 probe set. This dataset was used to generate Fig. 3 - 6 of the article.
BC_140815_M2A_GFP_ALK_IR
This zipped file contains the image dataset relative to Irradiated (25 Gy) Mac2A cells stained with the hiBA-ALK probe set. This dataset was used to generate Fig. 3 - 6 of the article.
BC_140815_M2A_GFP_NPM_IR
This zipped file contains the image dataset relative to Irradiated (25 Gy) Mac2A cells stained with the hiBA-NPM1 probe set. This dataset was used to generate Fig. 3 - 6 of the article.
BC_140819_M2A_GFP_NPM_UN
This zipped file contains the image dataset relative to Untreated Mac2A cells stained with the hiBA-NPM1 probe set. This dataset was used to generate Fig. 3 - 6 of the article.
BC_150527_K299_ZERO_ALK_UN
This zipped file contains the image dataset relative to 0% Untreated K299 cells (100% Mac2A cells) stained with the hiBA-ALK probe set. This dataset was used to generate Fig. S1 of the article.
BC_150527_K299_POINTONE_ALK_UN
This zipped file contains the image dataset relative to 0.1% Untreated K299 cells stained with the hiBA-ALK probe set. This dataset was used to generate Fig. S1 of the article.
BC_150527_K299_POINTFIVE_ALK_UN
This zipped file contains the image dataset relative to 0.5% Untreated K299 cells stained with the hiBA-ALK probe set. This dataset was used to generate Fig. S1 of the article.
BC_150527_K299_ONE_ALK_UN
This zipped file contains the image dataset relative to 1% Untreated K299 cells stained with the hiBA-ALK probe set. This dataset was used to generate Fig. S1 of the article.
BC_150527_K299_TEN_ALK_UN
This zipped file contains the image dataset relative to 10% Untreated K299 cells stained with the hiBA-ALK probe set. This dataset was used to generate Fig. S1 of the article.
BC_150527_K299_HUNDRED_ALK_UN
This zipped file contains the image dataset relative to 100% Untreated K299 cells stained with the hiBA-ALK probe set. This dataset was used to generate Fig. S1 of the article.

Files

Acapella_Scripts_Parameters.zip

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Additional details

Related works

Is cited by
10.1186/s13059-015-0718-x (DOI)